Strain identifier

BacDive ID: 141009

Type strain: Yes

Species: Agaribacterium haliotis

Strain Designation: feces2

NCBI tax ID(s): 2013869 (species)

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General

@ref: 43905

BacDive-ID: 141009

keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, motile, rod-shaped, colony-forming

description: Agaribacterium haliotis feces2 is a Gram-negative, motile, rod-shaped bacterium that forms circular colonies and was isolated from excreted faeces of abalone , from abalone breeding base, Jinjing town, Jinjiang county, Fujian province.

NCBI tax id

  • NCBI tax id: 2013869
  • Matching level: species

doi: 10.13145/bacdive141009.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Cellvibrionales
  • family: Cellvibrionaceae
  • genus: Agaribacterium
  • species: Agaribacterium haliotis
  • full scientific name: Agaribacterium haliotis Huang et al. 2017

@ref: 43905

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Cellvibrionales

family: Cellvibrionaceae

genus: Agaribacterium

species: Agaribacterium haliotis

strain designation: feces2

type strain: yes

Morphology

cell morphology

  • @ref: 43905
  • gram stain: negative
  • cell length: 1.0-1.5 µm
  • cell width: 0.7 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

colony morphology

  • @ref: 43905
  • colony size: 0.8 mm
  • colony color: white
  • colony shape: circular
  • medium used: Marine broth 2216

Culture and growth conditions

culture medium

  • @ref: 43905
  • name: Marine broth 2216
  • growth: yes
  • composition: supplemented with 0.1 % (w/v) agar

culture temp

@refgrowthtypetemperaturerange
43905positivegrowth16-40
43905positiveoptimum28-30mesophilic

Physiology and metabolism

observation

  • @ref: 43905
  • observation: quinone Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4390517128adipate-carbon source
4390527689decanoate-carbon source
4390516947citrate-carbon source
4390517634D-glucose-carbon source
4390516899D-mannitol-carbon source
4390516024D-mannose-carbon source
4390530849L-arabinose-carbon source
4390525115malate-carbon source
4390517306maltose-carbon source
43905506227N-acetylglucosamine-carbon source
4390518401phenylacetate-carbon source
4390532032potassium gluconate-carbon source
4390553258sodium citrate-carbon source
4390517128adipate-growth
4390527689decanoate-growth
4390517634D-glucose-growth
4390516899D-mannitol-growth
4390516024D-mannose-growth
4390530849L-arabinose-growth
4390525115malate-growth
4390517306maltose-growth
43905506227N-acetylglucosamine-growth
4390518401phenylacetate-growth
4390532032potassium gluconate-growth
4390553258sodium citrate-growth
439054853esculin-hydrolysis
439052509agar+degradation
4390517234glucose+fermentation
4390517632nitrate+reduction

metabolite production

@refChebi-IDmetaboliteproduction
4390515688acetoinno
4390516136hydrogen sulfideno
4390535581indoleno

metabolite tests

  • @ref: 43905
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
43905cytochrome oxidase+1.9.3.1
43905catalase-1.11.1.6
43905alkaline phosphatase+3.1.3.1
43905leucine arylamidase+3.4.11.1
43905acid phosphatase+3.1.3.2
43905beta-galactosidase+3.2.1.23
43905alpha-glucosidase+3.2.1.20
43905esterase (C 4)+/-
43905valine arylamidase+/-
43905naphthol-AS-BI-phosphohydrolase+/-
43905esterase Lipase (C 8)+/-
43905lipase (C 14)+/-
43905cystine arylamidase+/-3.4.11.3
43905trypsin+/-3.4.21.4
43905alpha-chymotrypsin+/-3.4.21.1
43905alpha-galactosidase+/-3.2.1.22
43905beta-glucuronidase+/-3.2.1.31
43905beta-glucosidase+/-3.2.1.21
43905N-acetyl-beta-glucosaminidase+/-3.2.1.52
43905alpha-mannosidase+/-3.2.1.24
43905beta-D-fucosidase+/-3.2.1.38
43905arginine dihydrolase+/-3.5.3.6
43905lysine decarboxylase+/-4.1.1.18
43905ornithine decarboxylase+/-4.1.1.17
43905urease+/-3.5.1.5
43905tryptophan deaminase+/-4.1.99.1
43905gelatinase+/-

Isolation, sampling and environmental information

isolation

  • @ref: 43905
  • sample type: excreted faeces of abalone (Haliotis discus hannai), from abalone breeding base, Jinjing town, Jinjiang county, Fujian province
  • sampling date: 2016-10-30
  • geographic location: Jinjing town, Jinjiang county, Fujian province
  • country: China
  • origin.country: CHN
  • continent: Asia
  • enrichment culture: Marine agar 2216
  • enrichment culture duration: 3 days
  • enrichment culture temperature: 25

isolation source categories

Cat1Cat2Cat3
#Host#Invertebrates (Other)#Mollusca
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Sequence information

16S sequences

  • @ref: 43905
  • description: 16S rRNA gene sequence
  • accession: KY400200
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Agaribacterium haliotis feces2GCA_002312815contigncbi2013869
66792Agaribacterium haliotis feces22788499912draftimg2013869

GC content

  • @ref: 43905
  • GC-content: 50.5
  • method: genome sequence analysis

External links

@ref: 43905

culture collection no.: MCCC 1A11450, KCTC 52708

literature

  • topic: Phylogeny
  • Pubmed-ID: 28901895
  • title: Agaribacterium haliotis gen. nov., sp. nov., isolated from abalone faeces.
  • authors: Huang Z, Lai Q, Zhang D, Shao Z
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002199
  • year: 2017
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/microbiology, Gammaproteobacteria/*classification/genetics/isolation & purification, Gastropoda/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
43905Zhaobin Huang, Qiliang Lai, Demin Zhang, Zongze ShaoAgaribacterium haliotis gen. nov., sp. nov., isolated from abalone faeces10.1099/ijsem.0.002199IJSEM 67: 3819-3823 201728901895
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes